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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ), 'gf_id' => 'HOM05D001073', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001073' ), 'data_identifier' => 'HOM05D001073', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001073', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '570', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06590' => 'bna', 'A02p40320' => 'bna', 'A05p01010' => 'bna', 'A06p35300' => 'bna', 'A09p06470' => 'bna', 'A10p17240' => 'bna', 'A10p32910' => 'bna', 'Aa31LG11G3720' => 'aar', 'Aa31LG1G12280' => 'aar', 'Aa31LG1G22090' => 'aar', 'Aa31LG1G28160' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_362.2939' => 'aag', 'Actinidia03013' => 'ach', 'Actinidia07097' => 'ach', 'Actinidia13842' => 'ach', 'Actinidia18680' => 'ach', 'Actinidia25652' => 'ach', 'Actinidia28083' => 'ach', 'Actinidia28283' => 'ach', 'Actinidia37280' => 'ach', 'Actinidia38235' => 'ach', 'Ah.05g178920' => 'amhyb', 'Ah.07g204590' => 'amhyb', 'Ah.10g033390' => 'amhyb', 'AL4G46260' => 'aly', 'AL6G12070' => 'aly', 'AL6G36050' => 'aly', 'AL71U10040' => 'aly', 'AL8G36680' => 'aly', 'AL8G36710' => 'aly', 'Aqoxy1G00675' => 'aox', 'Aqoxy2G01893' => 'aox', 'Aqoxy4G03161' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1K6ZHH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A77B5H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9G6ZW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PDCB5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PEG0RN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V64N20' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V960AN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6ILE8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y6Q3ES' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8TZMB' => 'arhy', 'AT2G46670' => 'ath', 'AT2G46790' => 'ath', 'AT5G02810' => 'ath', 'AT5G24470' => 'ath', 'AT5G60100' => 'ath', 'ATR0594G076' => 'atr', 'ATR0661G529' => 'atr', 'ATR0661G570' => 'atr', 'Atru.chr12.2429' => 'acertr', 'Atru.chr12.2430' => 'acertr', 'Atru.chr3.3751' => 'acertr', 'Atru.chr5.772' => 'acertr', 'Atru.chr8.2529' => 'acertr', 'Atru.chr8.2532' => 'acertr', 'AUR62004561' => 'cqu', 'AUR62005995' => 'cqu', 'AUR62008728' => 'cqu', 'AUR62022677' => 'cqu', 'AUR62028076' => 'cqu', 'AUR62036007' => 'cqu', 'AUR62041615' => 'cqu', 'BcaB04g19818' => 'bca', 'BcaB04g19820' => 'bca', 'BcaB05g21867' => 'bca', 'BcaB05g22620' => 'bca', 'BcaB06g29471' => 'bca', 'BcaB07g29911' => 'bca', 'BcaB08g36199' => 'bca', 'BcaC02g07003' => 'bca', 'BcaC02g12639' => 'bca', 'BcaC03g13043' => 'bca', 'BcaC03g17969' => 'bca', 'BcaC03g17973' => 'bca', 'BcaC04g23544' => 'bca', 'BcaNung01237' => 'bca', 'BcaNung02019' => 'bca', 'BcaNung03898' => 'bca', 'BolC2t06067H' => 'bol', 'BolC2t12084H' => 'bol', 'BolC4t21769H' => 'bol', 'BolC7t44846H' => 'bol', 'BolC9t53634H' => 'bol', 'BolC9t58126H' => 'bol', 'BolC9t60118H' => 'bol', 'BraA02t04732Z' => 'bra', 'BraA02t05742Z' => 'bra', 'BraA02t09000Z' => 'bra', 'BraA05t19101Z' => 'bra', 'BraA06t26456Z' => 'bra', 'BraA09t36290Z' => 'bra', 'BraA10t43808Z' => 'bra', 'BraA10t45328Z' => 'bra', 'C02p00690' => 'bna', 'C02p11880' => 'bna', 'C02p60280' => 'bna', 'C04p01150' => 'bna', 'C04p72440' => 'bna', 'C07p43210' => 'bna', 'C09p07220' => 'bna', 'C09p52600' => 'bna', 'C09p73840' => 'bna', 'CAN.G1174.2' => 'can', 'CAN.G128.133' => 'can', 'CAN.G172.6' => 'can', 'CAN.G172.7' => 'can', 'CAN.G303.21' => 'can', 'CAN.G350.51' => 'can', 'CAN.G3541.1' => 'can', 'CAN.G475.40' => 'can', 'CAN.G587.24' => 'can', 'CAN.G587.25' => 'can', 'CAN.G59.4' => 'can', 'CAN.G668.20' => 'can', 'CAN.G933.14' => 'can', 'CANSAT21G0770' => 'cansat', 'CANSAT56G2282' => 'cansat', 'CANSAT56G3253' => 'cansat', 'CARHR142130' => 'chi', 'CARHR153770' => 'chi', 'CARHR188940' => 'chi', 'CARHR210520' => 'chi', 'CARHR273730' => 'chi', 'Carub.0004s2950' => 'cru', 'Carub.0006s0161' => 'cru', 'Carub.0006s2230' => 'cru', 'Carub.0008s2066' => 'cru', 'Carub.0008s2080' => 'cru', 'Ca_02306_v3' => 'car', 'Ca_02307_v3' => 'car', 'Ca_09549_v3' => 'car', 'Ca_16780_v3' => 'car', 'Cc02_g00820' => 'ccan', 'Cc06_g03460' => 'ccan', 'Cc09_g02330' => 'ccan', 'CDE02G0160' => 'cde', 'CDE02G1366' => 'cde', 'CDE02G3056' => 'cde', 'CDE04G0181' => 'cde', 'CDE04G0588' => 'cde', 'CDE05G1104' => 'cde', 'CDE09G1025' => 'cde', 'CDE12G0618' => 'cde', 'CDE12G0629' => 'cde', 'Cfa003732' => 'cfa', 'Cfa011399' => 'cfa', 'Cfa016159' => 'cfa', 'Ciclev10011108m.g' => 'ccl', 'Ciclev10019177m.g' => 'ccl', 'Ciclev10023753m.g' => 'ccl', 'Ciclev10027794m.g' => 'ccl', 'Ciclev10030911m.g' => 'ccl', 'Ciclev10033433m.g' => 'ccl', 'CiPaw.01G082700' => 'cil', 'CiPaw.01G278200' => 'cil', 'CiPaw.02G044900' => 'cil', 'CiPaw.05G205200' => 'cil', 'CiPaw.06G041200' => 'cil', 'CiPaw.14G075300' => 'cil', 'ClCG01G000080' => 'cla', 'ClCG04G008730' => 'cla', 'COL.COLO4_08205' => 'col', 'COL.COLO4_08206' => 'col', 'COL.COLO4_10285' => 'col', 'COL.COLO4_10286' => 'col', 'COL.COLO4_14371' => 'col', 'COL.COLO4_18397' => 'col', 'COL.COLO4_23051' => 'col', 'Cpa.g.sc1.291' => 'cpa', 'Cpa.g.sc139.32' => 'cpa', 'Cpa.g.sc193.20' => 'cpa', 'Cpa.g.sc3.152' => 'cpa', 'Cre02.g094150' => 'cre', 'Cre11.g469400' => 'cre', 'Cre16.g676421' => 'cre', 'CsaV3_4G024430' => 'csa', 'CsaV3_5G000090' => 'csa', 'CSS0001864' => 'camsi', 'CSS0017104' => 'camsi', 'CSS0025745' => 'camsi', 'CSS0031509' => 'camsi', 'CSS0034102' => 'camsi', 'CSS0048222' => 'camsi', 'DCAR_010574' => 'dca', 'DCAR_014564' => 'dca', 'DCAR_014956' => 'dca', 'DCAR_015255' => 'dca', 'DCAR_017720' => 'dca', 'DCAR_020374' => 'dca', 'DCAR_032204' => 'dca', 'Dinv29210' => 'din', 'Dinv31378' => 'din', 'Dinv32647' => 'din', 'Dinv35381' => 'din', 'Dinv35692' => 'din', 'Dinv35693' => 'din', 'Duzib068G1289' => 'dzi', 'Duzib084G0302' => 'dzi', 'Duzib093G2124' => 'dzi', 'Duzib106G0593' => 'dzi', 'Duzib114G0232' => 'dzi', 'Duzib128G1496' => 'dzi', 'Duzib168G0521' => 'dzi', 'Duzib205G0504' => 'dzi', 'Duzib268G0380' => 'dzi', 'ECA233G3044' => 'eca', 'ECA233G5217' => 'eca', 'ECA238G0153' => 'eca', 'ECA238G4206' => 'eca', 'EL10Ac1g00184' => 'bvu', 'EL10Ac2g03535' => 'bvu', 'EL10Ac3g05174' => 'bvu', 'EL10Ac7g17317' => 'bvu', 'EL10As2g23184' => 'bvu', 'Eucgr.A01405' => 'egr', 'Eucgr.G02787' => 'egr', 'Eucgr.J02111' => 'egr', 'FAN01G1765' => 'fan', 'FAN01G3168' => 'fan', 'FAN02G3803' => 'fan', 'FAN03G1957' => 'fan', 'FAN03G3105' => 'fan', 'FAN05G2381' => 'fan', 'FAN06G1430' => 'fan', 'FAN06G1893' => 'fan', 'FAN09G3606' => 'fan', 'FAN10G0503' => 'fan', 'FAN10G2060' => 'fan', 'FAN10G3737' => 'fan', 'FAN10G3951' => 'fan', 'FAN14G0294' => 'fan', 'FvH4_6g15060' => 'fve', 'FvH4_7g17760' => 'fve', 'FvH4_7g32920' => 'fve', 'Glyma.03G261300' => 'gma', 'Glyma.04G228300' => 'gma', 'Glyma.06G136600' => 'gma', 'Glyma.07G049400' => 'gma', 'Glyma.10G048100' => 'gma', 'Glyma.11G148362' => 'gma', 'Glyma.12G073900' => 'gma', 'Glyma.13G096925' => 'gma', 'Glyma.13G135900' => 'gma', 'Glyma.16G018000' => 'gma', 'Glyma.19G260400' => 'gma', 'Gohir.1Z049541' => 'ghi', 'Gohir.A05G099900' => 'ghi', 'Gohir.A05G343600' => 'ghi', 'Gohir.A09G160600' => 'ghi', 'Gohir.A11G016500' => 'ghi', 'Gohir.A11G101100' => 'ghi', 'Gohir.A11G325400' => 'ghi', 'Gohir.A11G325450' => 'ghi', 'Gohir.A12G246400' => 'ghi', 'Gohir.D04G000100' => 'ghi', 'Gohir.D04G000180' => 'ghi', 'Gohir.D04G082000' => 'ghi', 'Gohir.D05G099700' => 'ghi', 'Gohir.D09G156300' => 'ghi', 'Gohir.D11G016300' => 'ghi', 'Gohir.D11G105700' => 'ghi', 'Gohir.D11G344400' => 'ghi', 'Gohir.D12G087201' => 'ghi', 'Gohir.D12G159466' => 'ghi', 'Gohir.D12G247100' => 'ghi', 'Gohir.D13G141501' => 'ghi', 'Gorai.006G177800' => 'gra', 'Gorai.007G017100' => 'gra', 'Gorai.007G113000' => 'gra', 'Gorai.007G374800' => 'gra', 'Gorai.008G265100' => 'gra', 'Gorai.009G103700' => 'gra', 'Gorai.012G001000' => 'gra', 'Gorai.012G092600' => 'gra', 'Gorai.013G158400' => 'gra', 'GSVIVG01025087001' => 'vvi', 'GSVIVG01025088001' => 'vvi', 'GSVIVG01025556001' => 'vvi', 'GSVIVG01027443001' => 'vvi', 'GSVIVG01032644001' => 'vvi', 'GSVIVG01038647001' => 'vvi', 'HanXRQChr01g0027331' => 'han', 'HanXRQChr03g0067491' => 'han', 'HanXRQChr07g0200931' => 'han', 'HanXRQChr08g0219331' => 'han', 'HanXRQChr08g0225931' => 'han', 'HanXRQChr12g0370381' => 'han', 'HanXRQChr14g0453441' => 'han', 'HanXRQChr14g0456051' => 'han', 'HanXRQChr14g0460851' => 'han', 'HanXRQChr15g0465341' => 'han', 'Haze_00298' => 'cav', 'Haze_15737' => 'cav', 'Haze_16956' => 'cav', 'Haze_23970' => 'cav', 'Hma1.2p1_0094F.1_g047380' => 'hma', 'Hma1.2p1_0207F.1_g088060' => 'hma', 'Hma1.2p1_0348F.1_g131870' => 'hma', 'Hma1.2p1_0415F.1_g148170' => 'hma', 'Hma1.2p1_0778F.1_g216670' => 'hma', 'Hma1.2p1_0786F.1_g217790' => 'hma', 'Hma1.2p1_0861F.1_g229620' => 'hma', 'Hma1.2p1_1714F.1_g299000' => 'hma', 'Hma1.2p1_2042F.1_g312250' => 'hma', 'HPP92_007233' => 'vpl', 'HPP92_007236' => 'vpl', 'HPP92_009038' => 'vpl', 'HPP92_013904' => 'vpl', 'HPP92_023077' => 'vpl', 'HPP92_025436' => 'vpl', 'Hund09715' => 'sun', 'Hund16753' => 'sun', 'Hund19289' => 'sun', 'Hund21058' => 'sun', 'Lalb_Chr01g0004011' => 'lal', 'Lalb_Chr02g0153571' => 'lal', 'Lalb_Chr04g0261311' => 'lal', 'Lalb_Chr08g0239601' => 'lal', 'Lalb_Chr10g0100891' => 'lal', 'Lalb_Chr11g0067411' => 'lal', 'Lalb_Chr23g0271931' => 'lal', 'Lj1A1028T69' => 'lonja', 'Lj1A928T59' => 'lonja', 'Lj1A928T60' => 'lonja', 'Lj1g0014516' => 'lja', 'Lj1g0026375' => 'lja', 'Lj2A105T66' => 'lonja', 'Lj2A105T67' => 'lonja', 'Lj2A105T68' => 'lonja', 'Lj3C977T14' => 'lonja', 'Lj3g0016171' => 'lja', 'Lj3g0026410' => 'lja', 'Lj5g0020233' => 'lja', 'Lj8A93G66' => 'lonja', 'Lsat_1_v5_gn_2_110060' => 'lsa', 'Lsat_1_v5_gn_2_115441' => 'lsa', 'Lsat_1_v5_gn_8_21260' => 'lsa', 'Lsat_1_v5_gn_8_4341' => 'lsa', 'Manes.01G043200' => 'mes', 'Manes.01G239500' => 'mes', 'Manes.04G027400' => 'mes', 'Manes.05G016200' => 'mes', 'Manes.07G105100' => 'mes', 'Manes.08G001600' => 'mes', 'Mapoly0122s0007' => 'mpo', 'MBI04_g27241_MAGBIO' => 'mbi', 'MBI12_g14504_MAGBIO' => 'mbi', 'MBI14_g17794_MAGBIO' => 'mbi', 'MBI17_g00900_MAGBIO' => 'mbi', 'MD01G1088900' => 'mdo', 'MD01G1114400' => 'mdo', 'MD01G1228200' => 'mdo', 'MD04G1113200' => 'mdo', 'MD07G1182300' => 'mdo', 'MD07G1182500' => 'mdo', 'MD07G1299100' => 'mdo', 'MD12G1128600' => 'mdo', 'Medtr1g067110' => 'mtr', 'Medtr1g098620' => 'mtr', 'Medtr3g092780' => 'mtr', 'Medtr4g061360' => 'mtr', 'Medtr5g094370' => 'mtr', 'Medtr7g118260' => 'mtr', 'Medtr8g024260' => 'mtr', 'MELO3C003075.2' => 'cme', 'MELO3C005921.2' => 'cme', 'Migut.F00152' => 'egut', 'Migut.F00987' => 'egut', 'Migut.J00402' => 'egut', 'Migut.L01650' => 'egut', 'MSTRG.19127' => 'ama', 'MSTRG.29' => 'ama', 'MSTRG.5711' => 'ama', 'MSTRG.8547' => 'ama', 'MSTRG.8612' => 'ama', 'Nitab4.5_0000319g0050' => 'nta', 'Nitab4.5_0000575g0010' => 'nta', 'Nitab4.5_0000754g0020' => 'nta', 'Nitab4.5_0001248g0010' => 'nta', 'Nitab4.5_0002053g0060' => 'nta', 'Nitab4.5_0004249g0020' => 'nta', 'Nitab4.5_0007768g0020' => 'nta', 'Nitab4.5_0010809g0020' => 'nta', 'Nn1g00448' => 'nnu', 'Nn1g00449' => 'nnu', 'Nn2g10604' => 'nnu', 'Nn2g12954' => 'nnu', 'Nn2g14288' => 'nnu', 'Nn3g18792' => 'nnu', 'Nn6g34708' => 'nnu', 'Oeu007918.1' => 'oeu', 'Oeu014501.1' => 'oeu', 'Oeu016499.1' => 'oeu', 'Oeu018421.1' => 'oeu', 'Oeu027142.1' => 'oeu', 'Oeu033840.4' => 'oeu', 'Oeu055060.1' => 'oeu', 'Oeu055390.1' => 'oeu', 'Oeu060078.1' => 'oeu', 'Oeu061030.2' => 'oeu', 'Os03g0284100' => 'osa', 'Os07g0695100' => 'osa', 'Os09g0532400' => 'osa', 'Os11g0157600' => 'osa', 'Peaxi162Scf00146g01328' => 'pax', 'Peaxi162Scf00313g00210' => 'pax', 'Peaxi162Scf00542g00315' => 'pax', 'Peaxi162Scf00912g00020' => 'pax', 'Peaxi162Scf01024g00007' => 'pax', 'Peaxi162Scf01024g00009' => 'pax', 'Peaxi162Scf01517g00133' => 'pax', 'PGR004G0181' => 'pgr', 'PGR042G3399' => 'pgr', 'PGR142G1433' => 'pgr', 'PGR142G3341' => 'pgr', 'PGSC0003DMG400000584' => 'stu', 'PGSC0003DMG402011297' => 'stu', 'Phvul.007G162500' => 'pvu', 'Phvul.009G045000' => 'pvu', 'Phvul.009G258300' => 'pvu', 'Phvul.010G119700' => 'pvu', 'Phvul.011G070600' => 'pvu', 'Phvul.011G070700' => 'pvu', 'Potri.002G179800' => 'ptr', 'Potri.008G046200' => 'ptr', 'Potri.010G215200' => 'ptr', 'Potri.012G005900' => 'ptr', 'Potri.014G106000' => 'ptr', 'Potri.015G002300' => 'ptr', 'Pp3c16_18460' => 'ppa', 'Pp3c16_18610' => 'ppa', 'Pp3c25_4920' => 'ppa', 'Pp3c25_5040' => 'ppa', 'PRCOL_00002222' => 'pco', 'PRCOL_00002223' => 'pco', 'PRCOL_00002264' => 'pco', 'PRCOL_00002265' => 'pco', 'PRCOL_00006746' => 'pco', 'Prupe.2G198500' => 'ppe', 'Prupe.2G318900' => 'ppe', 'Prupe.6G244200' => 'ppe', 'Psat0s3732g0240' => 'psa', 'Psat4g164080' => 'psa', 'Psat5g071920' => 'psa', 'Psat5g200320' => 'psa', 'Psat6g124840' => 'psa', 'Psat7g221720' => 'psa', 'PSO063G7301' => 'pso', 'PSO339G0813' => 'pso', 'PSO384G3416' => 'pso', 'PSO384G3618' => 'pso', 'PSO713G0030' => 'pso', 'PSO782G0646' => 'pso', 'QL01p035484' => 'qlo', 'QL02p066074' => 'qlo', 'QL07p045617' => 'qlo', 'QL07p045626' => 'qlo', 'QL08p047338' => 'qlo', 'QL08p057302' => 'qlo', 'QL08p057307' => 'qlo', 'QL09p007185' => 'qlo', 'RcHm_v2.0_Chr1g0361151' => 'rch', 'RcHm_v2.0_Chr1g0364431' => 'rch', 'RcHm_v2.0_Chr1g0382871' => 'rch', 'RcHm_v2.0_Chr3g0468241' => 'rch', 'Rhsim01G0180600' => 'rsi', 'Rhsim03G0215500' => 'rsi', 'Rhsim09G0155000' => 'rsi', 'Rhsim09G0209600' => 'rsi', 'Sabra02G0134200' => 'sbr', 'Sabra08G0032500' => 'sbr', 'Sabra10G0166300' => 'sbr', 'Sabra12G0003400' => 'sbr', 'Sabra12G0007900' => 'sbr', 'Sabra14G0078100' => 'sbr', 'Sabra14G0078200' => 'sbr', 'SalBow2G2266' => 'sbo', 'SalBow3G1955' => 'sbo', 'SalBow6G5838' => 'sbo', 'Sc01g0002150' => 'sci', 'Sc01g0003670' => 'sci', 'Sc06g0001820' => 'sci', 'Sc13g0010470' => 'sci', 'Sed0002942' => 'sed', 'Sed0014628' => 'sed', 'Sed0021704' => 'sed', 'Sed0021728' => 'sed', 'SEGI_00284' => 'sgi', 'SEGI_03174' => 'sgi', 'SEGI_08655' => 'sgi', 'SGA_v2.0_scaffold126G33876' => 'sas', 'SGA_v2.0_scaffold165G38192' => 'sas', 'SGA_v2.0_scaffold18G08465' => 'sas', 'SGA_v2.0_scaffold44G16847' => 'sas', 'SGA_v2.0_scaffold75G24892' => 'sas', 'SMO147G0045' => 'smo', 'SMO147G0096' => 'smo', 'SMO201G0155' => 'smo', 'SMO201G0161' => 'smo', 'Solyc03g081240.3' => 'sly', 'Solyc03g081270.2' => 'sly', 'Solyc04g049670.4' => 'sly', 'Solyc04g049680.2' => 'sly', 'Solyc10g005030.4' => 'sly', 'Solyc10g086000.3' => 'sly', 'Sopen03g021970' => 'spe', 'Sopen04g019880' => 'spe', 'Sopen10g001060' => 'spe', 'Sopen10g035370' => 'spe', 'Sp2g22860' => 'spa', 'Sp4g28820' => 'spa', 'Sp6g21750' => 'spa', 'Sp6g39770' => 'spa', 'TAR369G0307' => 'tar', 'TAR374G0355' => 'tar', 'TAR374G1239' => 'tar', 'TAR375G0041' => 'tar', 'TAR623G1705' => 'tar', 'TAR629G1568' => 'tar', 'TAR633G0787' => 'tar', 'TAR633G1485' => 'tar', 'TAR633G2656' => 'tar', 'THA.LOC104798984' => 'tha', 'THA.LOC104799475' => 'tha', 'THA.LOC104803342' => 'tha', 'THA.LOC104814950' => 'tha', 'THA.LOC104816313' => 'tha', 'THA.LOC104817398' => 'tha', 'THA.LOC104824243' => 'tha', 'THA.LOC104826990' => 'tha', 'THA.LOC104827642' => 'tha', 'Thecc.01G333100' => 'tca', 'Thecc.03G208800' => 'tca', 'Thecc.05G051700' => 'tca', 'Thecc.09G335000' => 'tca', 'Thecc.10G064700' => 'tca', 'Thhalv10001426m.g' => 'esa', 'Thhalv10003894m.g' => 'esa', 'Thhalv10012789m.g' => 'esa', 'TPR.G19834' => 'tpr', 'TPR.G2964' => 'tpr', 'TPR.G4777' => 'tpr', 'TWI14G0272' => 'twi', 'TWI23G0042' => 'twi', 'TWI31G0136' => 'twi', 'TWI59G1255' => 'twi', 'TWI79G0853' => 'twi', 'unitig_0.g2445' => 'ugi', 'unitig_37.g11994' => 'ugi', 'unitig_52.g17704' => 'ugi', 'unitig_748.g7277' => 'ugi', 'unitig_92.g28241' => 'ugi', 'vmacro06442' => 'vma', 'vmacro07098' => 'vma', 'vmacro10158' => 'vma', 'vmacro12638' => 'vma', 'vmacro22783' => 'vma', 'VMungo0331G1991' => 'vmu', 'VMungo0720G0913' => 'vmu', 'VMungo1309G1410' => 'vmu', 'VMungo1309G2840' => 'vmu', 'Zm00001eb092230' => 'zma', 'Zm00001eb103490' => 'zma', 'Zm00001eb112080' => 'zma', 'Zm00001eb198960' => 'zma', 'Zm00001eb319590' => 'zma', 'Zm00001eb331630' => 'zma', 'Zm00001eb397240' => 'zma' ) $gf_id = 'HOM05D001073' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001073' ) $data_identifier = 'HOM05D001073' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 10, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 6, 'cqu' => (int) 7, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 13, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 6, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 4, 'cre' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 6, 'dca' => (int) 7, 'din' => (int) 6, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 21, 'gra' => (int) 9, 'vvi' => (int) 6, 'han' => (int) 10, 'cav' => (int) 4, 'hma' => (int) 9, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 8, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 2, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 10, 'osa' => (int) 4, 'pax' => (int) 7, 'pgr' => (int) 4, 'stu' => (int) 2, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 4, 'pco' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 6, 'qlo' => (int) 8, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 7, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 4, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 4, 'sly' => (int) 6, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 9, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 5, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397240' $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